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nanoporetech / dorado

Oxford Nanopore's Basecaller
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alignment with "dorado basecaller" command #1102

Open Flower9618 opened 2 weeks ago

Flower9618 commented 2 weeks ago

Hello, when using 'dorado basecaller' command to do the alignment with '--reference' parameters. Can I set up multiple threads to speed up the alignment process？

HalfPhoton commented 2 weeks ago

Hi @Flower9618, Dorado basecaller does not have CLI arguments to set the number of threads used during alignment.

I'm interested in why you're exploring this as we typically see that alignment during basecalling runs concurrently and doesn't hugely affect basecalling performance.

Kind regards, Rich

malton-ont commented 1 day ago

Dorado standalone already attempts to determine an appropriate number of threads to use for alignment - see here, here and here.